BtaINT0013178 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046098 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr25:18539756-18542096:+
Coord C1 exon
chr25:18539756-18539956
Coord A exon
chr25:18539957-18541885
Coord C2 exon
chr25:18541886-18542096
Length
1929 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
ATGTGCCTATGCATACCTAGACA
3' ss Score
5.22
Exon sequences
Seq C1 exon
ATGAAGATTTTTTTCCGCTACCAGACATTCAGATTCATCTGGCTCACAAAGCCAATTGGCCGGCGCTTTCACAAAAGTCACCAGCTGGGAGCGCCTCTGACCCTCGCGGACTTTGAAGCCATAAATCGCTGTGAGAGATCATTGCCTAAGAACTTTAACTTTGCTGGGGATGTGCTGGACCAGTGGTCCCAAAAAGAGAAG
Seq A exon
GTACAAGATGACGGGCCTCCTGTAAATGCTTGGTGTCTACCTGTCTCTCAGCCTTCCATTTCCTTGTTCTGTGGCCATTTTTAATTCCATTTTTTCATACCTCTTGGTTTCCTTTGTTTTCCAATTGCCCTTCTCTCTCTCCAGGGAAGAACTTTGCCCCTCAACTACATATGGCTGTCTTCATCCTCAGCCCCCCTCATCATGGTTACTCAAAGAATTATGCCTCTTTCCCCTCATTTTCCCCAAGTCGAACATAGCAGCTCTTTGTTCTCCAATTCTTCTGTTTGGTCTGGTCACAAAAAAACAGTAACTTGAGCTTTGGTTTTATGAATAGTCATTGGTGCAGAAGCAGAGGTTGAAAAGGAAAAAGCAATATGTTTTATGAAGTGTTTAGTGTATCCCCAGGTCAAGGTCCCTGCATACTGACCCCCACCCCCAGCCAGGCACTAAGCTGAACACTTTACTTATCAATGCTTACCAAAGTGCACTGCGAGGGCCCGTGCTTCAGAATATATGCTACATGCACAAGGTACTGAATATGTGGAGTTAATTCTTCCTAGTAAATAGAATGGACAATCTTCCTTCAAATCTATTGTCTTTAGCAGCTTGCTTATATTTGACACACTCACTTTTGAACAGAGAGCACAGATAGAAGATGAAAATCTCTAGATAAAATGTAGGGACGTATTTTGTTTTCAGTATACATATTTATTTTTCAGTAACCCATTTTTAGCAAGTTGTACTGATTTTCCCATTATGGTGGTATTAATAATTAAACATATTTTCCTTAAGTAAAGTATTCAAGTGAAAATGAGTCAACAGTGTAAAGAAGAATACAAAGAACAACAGCACAAGTGTAGACAGATCTGGAAAAATAGTGATACTCAAATGACTAACGATTGAGAAATACAGATCTGTATTATTTCATCAAATCCCCATCACCACCCTGCAGATAAGGGGGCTGCAGATAAGGAACTTAACCTCACAGAAGTTAAGCTACTTATCCAAGTTCACCAGTTCAAAGGTAAATGAACCAGCTTCTGATCTTATAGAGCTTTAATCCATTGGATAGGGATGCCTTTATGATATCACAAAGTTTAATGGAATAAATGGGAACGTACATACAAAGCTTCAGGAACACAGAGAAGTCAGGAGAAGAAGTGGGAGCTAAGAAAGACTTGACCAAAGAAGTGAAATGAGAACTGAGCTTCCAAGTATTTTCCAACTAGGGAAGGTAAAGGGAGCATTCCAGATAGGGGAAAAAAAGGAGAGTAATATCTCCCCCAAGTAATACATAAAGCAAAAAGATTTTACAGTACAGACTTCTAGAATCACTATAAGACATTTGCTCCAGAAACCAATCAAGCTCCTTCCACAAAGGCCCTCCATCTTGTTCTCGGTTACCTATGAAAGCCATAGCTTGGTCTTTTGGGTAAAAAATGATAAGTTCCTAATCAGTCTTGGTCCATTCATTTTGGCTTTTGGTTGGAAGAGACTCTAACTTAAACAAGAAAGAAATTTATCAAAGGAATGTGGGGGAGGTCACAAAATTGGGTTGGAAGCTGGAGTTTTCACAAGGACAGGAAGCAGGACAGATGCATAAGCACCAAGAGCCAATAGACGGATTTTGCTCCAACCATTTTCTATCTTTTTGTTCTTCTCAGAAAACTCAATCAGGGACAGAAGTTGTGATTGGCCCAACTTGGTTCACAGGCCCACATGCTGATCAGGGAAGGACGGGCACCCCGATGGGTTGTCTCAACAAGGCGGTGTTTGATAGAATAGTGGCTCCCCCACAGACAAACTGGTTCTGTTACTGGGCTCCACCAGCACAAATGCTGAGGGAAAGACACCAAATATGTCCCATCTATTTGATGACCACTCATTCGCGCCTTCTCCCCTCTTTCCCATGTGCCTATGCATACCTAG
Seq C2 exon
ACAGGAGAGAGACCAGCCAACCCAGCCCTGTGGTGGGTGAATGGCAAAGGGGATGAGGTGAAATGGAGCTTTGGAGAACTGGGCTCCTTGTCCCGAAAGGCTGCCAATGTGCTCACCAAGCCCTGTGGTTTAGAGAGAGGAGACCGAGTGGCCGTGATTCTTCCCCGAATCCCAGAGTGGTGGCTTATAAACGTGGCTTGTATGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046098:ENSBTAT00000064764:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(0.7=4.5)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCGCTTTCACAAAAGTCAC
R:
ACAAGCCACGTTTATAAGCCAC
Band lengths:
342-2271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]